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466ab67808
* Fix minimap2 index module * Fix minimap2 index tests * Fix graphmap2 index module * Fix graphmap2 module * Fix ECLint * Fix bedtools bamtobed module * Fix tests for bedtools bamtobed module * Add tag for graphmap2 align module * Fix EClint * Fix qcat module * Add md5sum for graphmap2/align module * Remove non-started test data file * Remove md5sum for graphmap2 align
37 lines
1.1 KiB
YAML
37 lines
1.1 KiB
YAML
name: bedtools_bamtobed
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description: Converts a bam file to a bed12 file.
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keywords:
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- bam
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- bed
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tools:
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- bedtools:
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description: |
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A set of tools for genomic analysis tasks, specifically enabling genome arithmetic (merge, count, complement) on various file types.
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documentation: https://bedtools.readthedocs.io/en/latest/content/tools/complement.html
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input:
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- meta:
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type: map
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description: |
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Groovy Map containing sample information
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e.g. [ id:'test', single_end:false ]
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- bam:
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type: file
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description: Input BAM file
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pattern: "*.{bam}"
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output:
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- meta:
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type: map
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description: |
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Groovy Map containing sample information
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e.g. [ id:'test', single_end:false ]
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- bed:
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type: file
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description: Bed file containing genomic intervals.
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pattern: "*.{bed}"
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- version:
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type: file
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description: File containing software version
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pattern: "*.{version.txt}"
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authors:
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- "@yuukiiwa"
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- "@drpatelh"
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